Description of Sphingorhabdus planktonica gen. nov., sp. nov. and reclassification of three related members of the genus Sphingopyxis in the genus Sphingorhabdus gen. nov.

Medientyp: E-Artikel
Titel: Description of Sphingorhabdus planktonica gen. nov., sp. nov. and reclassification of three related members of the genus Sphingopyxis in the genus Sphingorhabdus gen. nov
Beteiligte: Jogler, Mareike; Chen, Hong; Simon, Julia; Rohde, Manfred; Busse, Hans-Jürgen; Klenk, Hans-Peter; Tindall, Brian J.; Overmann, Jörg
Erschienen: Microbiology Society, 2013
Erschienen in: International Journal of Systematic and Evolutionary Microbiology
Sprache: Englisch
DOI: 10.1099/ijs.0.043133-0
ISSN: 1466-5026; 1466-5034
Schlagwörter: General Medicine ; Ecology, Evolution, Behavior and Systematics ; Microbiology
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Beschreibung: <jats:p>A previously undescribed aerobic, non-sporulating bacterium, strain G1A_585<jats:sup>T</jats:sup>, was isolated from an oligotrophic freshwater lake in Bavaria, Germany. The rod-shaped cells were Gram-stain-negative and non-motile. Based on 16S rRNA gene sequence similarity, strain G1A_585<jats:sup>T</jats:sup> was a member of the family <jats:named-content xmlns:xlink="http://www.w3.org/1999/xlink" content-type="family" xlink:type="simple"> <jats:ext-link ext-link-type="uri" xlink:href="http://dx.doi.org/10.1601/nm.1165" xlink:type="simple"> <jats:italic>Sphingomonadaceae</jats:italic> </jats:ext-link> </jats:named-content> and shared <95.2 % similarity with type strains of all members of the most closely related genus, <jats:named-content xmlns:xlink="http://www.w3.org/1999/xlink" content-type="genus" xlink:type="simple"> <jats:ext-link ext-link-type="uri" xlink:href="http://dx.doi.org/10.1601/nm.1238" xlink:type="simple"> <jats:italic>Sphingopyxis</jats:italic> </jats:ext-link> </jats:named-content>. Phyogenetically, the isolate shared a root with strains of three marine species, <jats:named-content xmlns:xlink="http://www.w3.org/1999/xlink" content-type="species" xlink:type="simple"> <jats:ext-link ext-link-type="uri" xlink:href="http://dx.doi.org/10.1601/nm.8853" xlink:type="simple"> <jats:italic>Sphingopyxis flavimaris</jats:italic> </jats:ext-link> </jats:named-content> DSM 16223<jats:sup>T</jats:sup>, <jats:named-content xmlns:xlink="http://www.w3.org/1999/xlink" content-type="species" xlink:type="simple"> <jats:ext-link ext-link-type="uri" xlink:href="http://dx.doi.org/10.1601/nm.13619" xlink:type="simple"> <jats:italic>Sphingopyxis marina</jats:italic> </jats:ext-link> </jats:named-content> DSM 22363<jats:sup>T</jats:sup> and <jats:named-content xmlns:xlink="http://www.w3.org/1999/xlink" content-type="species" xlink:type="simple"> <jats:ext-link ext-link-type="uri" xlink:href="http://dx.doi.org/10.1601/nm.13618" xlink:type="simple"> <jats:italic>Sphingopyxis litoris</jats:italic> </jats:ext-link> </jats:named-content> DSM 22379<jats:sup>T</jats:sup>. The polar lipids of strain G1A_585<jats:sup>T</jats:sup> were diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, phosphatidylmonomethylethanolamine, phosphatidyldimethylethanolamine, phosphatidylcholine, sphingoglycolipids, three glycolipids and one unknown lipid. Ubiquinone-10 was the dominant quinone (93.1 %) and ubiquinone-9 (6.5 %) was also detected. The major cellular fatty acids were summed feature 8 (C<jats:sub>18 : 1</jats:sub>ω7<jats:italic>c</jats:italic> and/or C<jats:sub>18 : 1</jats:sub>ω6<jats:italic>c</jats:italic>; 38.2 %); C<jats:sub>16 : 1</jats:sub>ω7<jats:italic>c</jats:italic> (33.6 %) and C<jats:sub>14 : 0</jats:sub> 2-OH (17.8 %). The major polyamine was spermidine and traces of 1,3-diaminopropane, putrescine and spermine were also detected. The DNA G+C content of strain G1A_585<jats:sup>T</jats:sup> was 55.7 mol% and the isolate was oxidase- and catalase-positive. Based on the phylogenetic relationship, the low DNA G+C content compared with most other members of the genus <jats:named-content xmlns:xlink="http://www.w3.org/1999/xlink" content-type="genus" xlink:type="simple"> <jats:ext-link ext-link-type="uri" xlink:href="http://dx.doi.org/10.1601/nm.1238" xlink:type="simple"> <jats:italic>Sphingopyxis</jats:italic> </jats:ext-link> </jats:named-content> and the presence of signature nucleotides in the 16S rRNA gene sequence, a novel species in a new genus and species, <jats:italic>Sphingorhabdus planktonica</jats:italic> gen. nov., sp. nov., is proposed; the type strain of <jats:italic>Sphingorhabdus planktonica</jats:italic> is G1A_585<jats:sup>T</jats:sup> ( = DSM 25081<jats:sup>T</jats:sup> = LMG 26646<jats:sup>T</jats:sup>). Because <jats:named-content xmlns:xlink="http://www.w3.org/1999/xlink" content-type="species" xlink:type="simple"> <jats:ext-link ext-link-type="uri" xlink:href="http://dx.doi.org/10.1601/nm.8853" xlink:type="simple"> <jats:italic>Sphingopyxis flavimaris</jats:italic> </jats:ext-link> </jats:named-content> DSM 16223<jats:sup>T</jats:sup>, <jats:named-content xmlns:xlink="http://www.w3.org/1999/xlink" content-type="species" xlink:type="simple"> <jats:ext-link ext-link-type="uri" xlink:href="http://dx.doi.org/10.1601/nm.13619" xlink:type="simple"> <jats:italic>Sphingopyxis marina</jats:italic> </jats:ext-link> </jats:named-content> DSM 22363<jats:sup>T</jats:sup> and <jats:named-content xmlns:xlink="http://www.w3.org/1999/xlink" content-type="species" xlink:type="simple"> <jats:ext-link ext-link-type="uri" xlink:href="http://dx.doi.org/10.1601/nm.13618" xlink:type="simple"> <jats:italic>Sphingopyxis litoris</jats:italic> </jats:ext-link> </jats:named-content> DSM 22379<jats:sup>T</jats:sup> form a phylogenetic group together with strain G1A_585<jats:sup>T</jats:sup> that is clearly separated from all other known <jats:named-content xmlns:xlink="http://www.w3.org/1999/xlink" content-type="genus" xlink:type="simple"> <jats:ext-link ext-link-type="uri" xlink:href="http://dx.doi.org/10.1601/nm.1238" xlink:type="simple"> <jats:italic>Sphingopyxis</jats:italic> </jats:ext-link> </jats:named-content> strains and share signature nucleotides, these three <jats:named-content xmlns:xlink="http://www.w3.org/1999/xlink" content-type="genus" xlink:type="simple"> <jats:ext-link ext-link-type="uri" xlink:href="http://dx.doi.org/10.1601/nm.1238" xlink:type="simple"> <jats:italic>Sphingopyxis</jats:italic> </jats:ext-link> </jats:named-content> strains are reclassified as members of the proposed novel genus <jats:italic>Sphingorhabdus</jats:italic>: <jats:italic>Sphingorhabdus flavimaris</jats:italic> comb. nov. (type strain SW-151<jats:sup>T</jats:sup> = DSM 16223<jats:sup>T</jats:sup> = KCTC 12232<jats:sup>T</jats:sup>), <jats:italic>Sphingorhabdus marina</jats:italic> comb. nov. (type strain FR1087<jats:sup>T</jats:sup> = DSM 22363<jats:sup>T</jats:sup> = IMSNU 14132<jats:sup>T</jats:sup> = KCTC 12763<jats:sup>T</jats:sup> = JCM 14161<jats:sup>T</jats:sup>) and <jats:italic>Sphingorhabdus litoris</jats:italic> comb. nov. (type strain FR1093<jats:sup>T</jats:sup> = DSM 22379<jats:sup>T</jats:sup> = IMSNU 14133<jats:sup>T</jats:sup> = KCTC 12764<jats:sup>T</jats:sup> = JCM 14162<jats:sup>T</jats:sup>).</jats:p>
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